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Conserved domains on  [gi|763150918|ref|WP_044030581|]
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MULTISPECIES: tyrosine-type DNA invertase [Serratia]

Protein Classification

site-specific integrase( domain architecture ID 332)

tyrosine based site-specific recombinase (integrase) is involved in cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct

CATH:  1.10.443.10
Gene Ontology:  GO:0015074|GO:0003677|GO:0006310
PubMed:  10577069|10047575|9278480
SCOP:  4002347

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
DNA_BRE_C super family cl00213
DNA breaking-rejoining enzymes, C-terminal catalytic domain; The DNA breaking-rejoining enzyme ...
 1-181 1.77e-88

DNA breaking-rejoining enzymes, C-terminal catalytic domain; The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine based site-specific recombinases (integrases) that share the same fold in their catalytic domain containing conserved active site residues. The best-studied members of this diverse superfamily include Human topoisomerase I, the bacteriophage lambda integrase, the bacteriophage P1 Cre recombinase, the yeast Flp recombinase, and the bacterial XerD/C recombinases. Their overall reaction mechanism is essentially identical and involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. The enzymes differ in that topoisomerases cleave and then rejoin the same 5' and 3' termini, whereas a site-specific recombinase transfers a 5' hydroxyl generated by recombinase cleavage to a new 3' phosphate partner located in a different duplex region. Many DNA breaking-rejoining enzymes also have N-terminal domains, which show little sequence or structure similarity.


The actual alignment was detected with superfamily member cd01197:

Pssm-ID: 469662 [Multi-domain]  Cd Length: 181  Bit Score: 257.05  E-value: 1.77e-88
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918   1 MSNRKHLTPSEVERLLEVTLQGKNPERDYCLIYMCFIHGCRASEIGGWRLSDIDLEGGNIYVHRLKNGFSTVHPLYLRER 80
Cdd:cd01197    1 MKQRKYLTGKEVQALLQAACRGRTPARDYCLLLLAFRHGFRVSELCDLHLSDVDLESRRLHIRRLKNGFSTTHPLRFDER 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918  81 QCLRRWLDKRQRHRWADQEWLFLSNRGGRLSRQRIYGLIRHYSKVAKLEVNAHPHMLRHGCGFALADRGIDTRLIQDYLG 160
Cdd:cd01197   81 EALEAWLKERANWKGADTDWIFLSRRGGPLSRQQAYRIIRDLGKEAGTVTQTHPHMLRHACGYALADRGADTRLIQDYLG 160

                        170       180
                 ....*....|....*....|.
gi 763150918 161 HRNIQNTVIYTASNAQRFKEI 181
Cdd:cd01197  161 HRNIRHTVIYTASNAARFANL 181
 
Name Accession Description Interval E-value
INT_FimBE_like cd01197
FimB and FimE and related proteins, integrase/recombinases; This CD includes proteins similar ...
 1-181 1.77e-88

FimB and FimE and related proteins, integrase/recombinases; This CD includes proteins similar to E.coli FimE and FimB and Proteus mirabilis MrpI. FimB and FimE are the regulatory proteins during expression of type 1 fimbriae in Escherichia coli. The fimB and fimE proteins direct the phase switch into the 'on' and 'off' position. MrpI is the regulatory protein of proteus mirabilis fimbriae expression. This family belongs to the integrase/recombinase superfamily.


Pssm-ID: 271197 [Multi-domain]  Cd Length: 181  Bit Score: 257.05  E-value: 1.77e-88
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918   1 MSNRKHLTPSEVERLLEVTLQGKNPERDYCLIYMCFIHGCRASEIGGWRLSDIDLEGGNIYVHRLKNGFSTVHPLYLRER 80
Cdd:cd01197    1 MKQRKYLTGKEVQALLQAACRGRTPARDYCLLLLAFRHGFRVSELCDLHLSDVDLESRRLHIRRLKNGFSTTHPLRFDER 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918  81 QCLRRWLDKRQRHRWADQEWLFLSNRGGRLSRQRIYGLIRHYSKVAKLEVNAHPHMLRHGCGFALADRGIDTRLIQDYLG 160
Cdd:cd01197   81 EALEAWLKERANWKGADTDWIFLSRRGGPLSRQQAYRIIRDLGKEAGTVTQTHPHMLRHACGYALADRGADTRLIQDYLG 160

                        170       180
                 ....*....|....*....|.
gi 763150918 161 HRNIQNTVIYTASNAQRFKEI 181
Cdd:cd01197  161 HRNIRHTVIYTASNAARFANL 181
PRK09870 PRK09870
tyrosine recombinase; Provisional
 4-182 2.06e-74

tyrosine recombinase; Provisional


Pssm-ID: 182125  Cd Length: 200  Bit Score: 222.12  E-value: 2.06e-74
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918   4 RKHLTPSEVERLLEVTLQGKNPERDYCLIYMCFIHGCRASEIGGWRLSDIDLEGGNIYVHRLKNGFSTVHPLYLRERQCL 83
Cdd:PRK09870  10 RNFLTHSEIESLLKAANTGPHAARNYCLTLLCFIHGFRASEICRLRISDIDLKAKCIYIHRLKKGFSTTHPLLNKEIQAL 89

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918  84 RRWLDKRQRHRWADQEWLFLSNRGGRLSRQRIYGLIRHYSKVAKLEVNAHPHMLRHGCGFALADRGIDTRLIQDYLGHRN 163
Cdd:PRK09870  90 KNWLSIRTSYPHAESEWVFLSRKGNPLSRQQFYHIISTSGGNAGLSLEIHPHMLRHSCGFALANMGIDTRLIQDYLGHRN 169

                        170
                 ....*....|....*....
gi 763150918 164 IQNTVIYTASNAQRFKEIW 182
Cdd:PRK09870 170 IRHTVWYTASNAGRFYGIW 188
Phage_integrase pfam00589
Phage integrase family; Members of this family cleave DNA substrates by a series of staggered ...
 7-175 5.41e-48

Phage integrase family; Members of this family cleave DNA substrates by a series of staggered cuts, during which the protein becomes covalently linked to the DNA through a catalytic tyrosine residue at the carboxy end of the alignment. The catalytic site residues in CRE recombinase are Arg-173, His-289, Arg-292 and Tyr-324.


Pssm-ID: 395471 [Multi-domain]  Cd Length: 169  Bit Score: 153.63  E-value: 5.41e-48
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918    7 LTPSEVERLLEVTLQGKNPERDYCLIYMCFIHGCRASEIGGWRLSDIDLEGGNIYVHRLKNGFSTVHPLYLRERQCLRRW 86
Cdd:pfam00589   2 LTEDEVERLLDAAETGPLSIRDKALLELLYATGLRISELCSLRWSDIDFENGVIRVHRGKGNKERTVPLSDAALELLKEW 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918   87 LDKRQRHRwADQEWLFLSNRGGRLSRQRIYGLIRHYSKVAKLEVNAHPHMLRHGCGFALADRGIDTRLIQDYLGHRNIQN 166
Cdd:pfam00589  82 LSKRLLEA-PKSDYLFASKRGKPLSRQTVRKIFKRAGKEAGLELPLHPHMLRHSFATHLLEAGVDLRVVQKLLGHSSIST 160


                  ....*....
gi 763150918  167 TVIYTASNA 175
Cdd:pfam00589 161 TQIYTHVAD 169
XerD COG4974
Site-specific recombinase XerD [Replication, recombination and repair];
4-181 1.44e-36

Site-specific recombinase XerD [Replication, recombination and repair];


Pssm-ID: 443999 [Multi-domain]  Cd Length: 291  Bit Score: 128.19  E-value: 1.44e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918   4 RKHLTPSEVERLLE-VTLQGKNPERDYCLIYMCFIHGCRASEIGGWRLSDIDLEGGNIYVHRLKNGfstvhplylRER-- 80
Cdd:COG4974  110 PRVLTEEEIEALLEaLDTETPEGLRDRALLLLLYATGLRVSELLGLKWSDIDLDRGTIRVRRGKGG---------KERtv 180

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918  81 ---QCLRRWLDK-RQRHRWADQEWLFLSNRGGRLSRQRIYGLIRHYSKVAKLEVNAHPHMLRHGCGFALADRGIDTRLIQ 156
Cdd:COG4974  181 plsPEALEALREyLEERRPRDSDYLFPTRRGRPLSRRAIRKILKRLAKRAGIPKRVTPHSLRHTFATHLLEAGVDLRTVQ 260

                        170       180
                 ....*....|....*....|....*
gi 763150918 157 DYLGHRNIQNTVIYTASNAQRFKEI 181
Cdd:COG4974  261 ELLGHSSISTTQIYTHVSDEELREA 285
recomb_XerD TIGR02225
tyrosine recombinase XerD; The phage integrase family describes a number of recombinases with ...
 5-182 1.40e-30

tyrosine recombinase XerD; The phage integrase family describes a number of recombinases with tyrosine active sites that transiently bind covalently to DNA. Many are associated with mobile DNA elements, including phage, transposons, and phase variation loci. This model represents XerD, one of two closely related chromosomal proteins along with XerC (TIGR02224). XerC and XerD are site-specific recombinases which help resolve chromosome dimers to monomers for cell division after DNA replication. In species with a large chromosome and with homologs of XerD on other replicons, the chomosomal copy was preferred for building this model. This model does not detect all XerD, as some apparent XerD examples score below the trusted and noise cutoff scores. XerC and XerD interact with cell division protein FtsK. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 274043 [Multi-domain]  Cd Length: 291  Bit Score: 112.68  E-value: 1.40e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918    5 KHLTPSEVERLLEVTlQGKNPE--RDYCLIYMCFIHGCRASEIGGWRLSDIDLEGGNIYVhRLKNGFSTVHPLYLRERQC 82
Cdd:TIGR02225 103 KVLTVEEVEALLAAP-DVDTPLglRDRAMLELLYATGLRVSELVGLRLEDVNLDEGFVRV-RGKGNKERLVPLGEEAIEA 180

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918   83 LRRWLDKRqRHRWADQ-----EWLFLSNRGGRLSRQRIYGLIRHYSKVAKLEVNAHPHMLRHGCGFALADRGIDTRLIQD 157
Cdd:TIGR02225 181 LERYLKEA-RPLLLKKkvkesDALFLNRRGGPLSRQGVWKILKEYAKRAGIEKPISPHTLRHSFATHLLENGADLRVVQE 259

                         170       180
                  ....*....|....*....|....*
gi 763150918  158 YLGHRNIQNTVIYTASNAQRFKEIW 182
Cdd:TIGR02225 260 LLGHADISTTQIYTHVARERLKEVH 284
 
Name Accession Description Interval E-value
INT_FimBE_like cd01197
FimB and FimE and related proteins, integrase/recombinases; This CD includes proteins similar ...
 1-181 1.77e-88

FimB and FimE and related proteins, integrase/recombinases; This CD includes proteins similar to E.coli FimE and FimB and Proteus mirabilis MrpI. FimB and FimE are the regulatory proteins during expression of type 1 fimbriae in Escherichia coli. The fimB and fimE proteins direct the phase switch into the 'on' and 'off' position. MrpI is the regulatory protein of proteus mirabilis fimbriae expression. This family belongs to the integrase/recombinase superfamily.


Pssm-ID: 271197 [Multi-domain]  Cd Length: 181  Bit Score: 257.05  E-value: 1.77e-88
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918   1 MSNRKHLTPSEVERLLEVTLQGKNPERDYCLIYMCFIHGCRASEIGGWRLSDIDLEGGNIYVHRLKNGFSTVHPLYLRER 80
Cdd:cd01197    1 MKQRKYLTGKEVQALLQAACRGRTPARDYCLLLLAFRHGFRVSELCDLHLSDVDLESRRLHIRRLKNGFSTTHPLRFDER 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918  81 QCLRRWLDKRQRHRWADQEWLFLSNRGGRLSRQRIYGLIRHYSKVAKLEVNAHPHMLRHGCGFALADRGIDTRLIQDYLG 160
Cdd:cd01197   81 EALEAWLKERANWKGADTDWIFLSRRGGPLSRQQAYRIIRDLGKEAGTVTQTHPHMLRHACGYALADRGADTRLIQDYLG 160

                        170       180
                 ....*....|....*....|.
gi 763150918 161 HRNIQNTVIYTASNAQRFKEI 181
Cdd:cd01197  161 HRNIRHTVIYTASNAARFANL 181
PRK09870 PRK09870
tyrosine recombinase; Provisional
 4-182 2.06e-74

tyrosine recombinase; Provisional


Pssm-ID: 182125  Cd Length: 200  Bit Score: 222.12  E-value: 2.06e-74
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918   4 RKHLTPSEVERLLEVTLQGKNPERDYCLIYMCFIHGCRASEIGGWRLSDIDLEGGNIYVHRLKNGFSTVHPLYLRERQCL 83
Cdd:PRK09870  10 RNFLTHSEIESLLKAANTGPHAARNYCLTLLCFIHGFRASEICRLRISDIDLKAKCIYIHRLKKGFSTTHPLLNKEIQAL 89

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918  84 RRWLDKRQRHRWADQEWLFLSNRGGRLSRQRIYGLIRHYSKVAKLEVNAHPHMLRHGCGFALADRGIDTRLIQDYLGHRN 163
Cdd:PRK09870  90 KNWLSIRTSYPHAESEWVFLSRKGNPLSRQQFYHIISTSGGNAGLSLEIHPHMLRHSCGFALANMGIDTRLIQDYLGHRN 169

                        170
                 ....*....|....*....
gi 763150918 164 IQNTVIYTASNAQRFKEIW 182
Cdd:PRK09870 170 IRHTVWYTASNAGRFYGIW 188
PRK09871 PRK09871
tyrosine recombinase; Provisional
 1-182 1.59e-62

tyrosine recombinase; Provisional


Pssm-ID: 182126  Cd Length: 198  Bit Score: 191.73  E-value: 1.59e-62
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918   1 MSNRKHLTPSEVERLLEVTLQGKNPERDYCLIYMCFIHGCRASEIGGWRLSDIDLEGGNIYVHRLKNGFSTVHPLYLRER 80
Cdd:PRK09871   1 MSKRRYLTGKEVQAMMQAVCYGATGARDYCLILLAYRHGMRISELLDLHYQDLDLNEGRINIRRLKNGFSTVHPLRFDER 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918  81 QCLRRWLDKRQRHRWADQ-EWLFLSNRGGRLSRQRIYGLIRHYSKVAKLEVNAHPHMLRHGCGFALADRGIDTRLIQDYL 159
Cdd:PRK09871  81 EAVERWTQERANWKGADRtDAIFISRRGSRLSRQQAYRIIRDAGIEAGTVTQTHPHMLRHACGYELAERGADTRLIQDYL 160

                        170       180
                 ....*....|....*....|...
gi 763150918 160 GHRNIQNTVIYTASNAQRFKEIW 182
Cdd:PRK09871 161 GHRNIRHTVRYTASNAARFAGLW 183
Phage_integrase pfam00589
Phage integrase family; Members of this family cleave DNA substrates by a series of staggered ...
 7-175 5.41e-48

Phage integrase family; Members of this family cleave DNA substrates by a series of staggered cuts, during which the protein becomes covalently linked to the DNA through a catalytic tyrosine residue at the carboxy end of the alignment. The catalytic site residues in CRE recombinase are Arg-173, His-289, Arg-292 and Tyr-324.


Pssm-ID: 395471 [Multi-domain]  Cd Length: 169  Bit Score: 153.63  E-value: 5.41e-48
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918    7 LTPSEVERLLEVTLQGKNPERDYCLIYMCFIHGCRASEIGGWRLSDIDLEGGNIYVHRLKNGFSTVHPLYLRERQCLRRW 86
Cdd:pfam00589   2 LTEDEVERLLDAAETGPLSIRDKALLELLYATGLRISELCSLRWSDIDFENGVIRVHRGKGNKERTVPLSDAALELLKEW 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918   87 LDKRQRHRwADQEWLFLSNRGGRLSRQRIYGLIRHYSKVAKLEVNAHPHMLRHGCGFALADRGIDTRLIQDYLGHRNIQN 166
Cdd:pfam00589  82 LSKRLLEA-PKSDYLFASKRGKPLSRQTVRKIFKRAGKEAGLELPLHPHMLRHSFATHLLEAGVDLRVVQKLLGHSSIST 160


                  ....*....
gi 763150918  167 TVIYTASNA 175
Cdd:pfam00589 161 TQIYTHVAD 169
XerD COG4974
Site-specific recombinase XerD [Replication, recombination and repair];
4-181 1.44e-36

Site-specific recombinase XerD [Replication, recombination and repair];


Pssm-ID: 443999 [Multi-domain]  Cd Length: 291  Bit Score: 128.19  E-value: 1.44e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918   4 RKHLTPSEVERLLE-VTLQGKNPERDYCLIYMCFIHGCRASEIGGWRLSDIDLEGGNIYVHRLKNGfstvhplylRER-- 80
Cdd:COG4974  110 PRVLTEEEIEALLEaLDTETPEGLRDRALLLLLYATGLRVSELLGLKWSDIDLDRGTIRVRRGKGG---------KERtv 180

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918  81 ---QCLRRWLDK-RQRHRWADQEWLFLSNRGGRLSRQRIYGLIRHYSKVAKLEVNAHPHMLRHGCGFALADRGIDTRLIQ 156
Cdd:COG4974  181 plsPEALEALREyLEERRPRDSDYLFPTRRGRPLSRRAIRKILKRLAKRAGIPKRVTPHSLRHTFATHLLEAGVDLRTVQ 260

                        170       180
                 ....*....|....*....|....*
gi 763150918 157 DYLGHRNIQNTVIYTASNAQRFKEI 181
Cdd:COG4974  261 ELLGHSSISTTQIYTHVSDEELREA 285
XerC COG4973
Site-specific recombinase XerC [Replication, recombination and repair];
4-182 1.51e-33

Site-specific recombinase XerC [Replication, recombination and repair];


Pssm-ID: 443998 [Multi-domain]  Cd Length: 287  Bit Score: 120.07  E-value: 1.51e-33
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918   4 RKHLTPSEVERLLEVTLQGKNPERDYCLIYMCFIHGCRASEIGGWRLSDIDLEGGNIYVHRlKNGFSTVHPLYLRERQCL 83
Cdd:COG4973  109 PRALTVDELAQLLDALADDPLAVRDRAIVELLYSTGLRLGELVGLDWEDVDLDAGEVRVRG-KTGKSRTVPLGPKALAAL 187

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918  84 RRWLDKRQRHRWADQEWLFLSNRGGRLSRQRIYGLIRHYSKVAKLEVNAHPHMLRHGCGFALADRGIDTRLIQDYLGHRN 163
Cdd:COG4973  188 REWLAVRPELAAPDEGALFPSRRGTRLSPRNVQKRLRRLAKKAGLPKHVHPHDLRHSFATHLLESGGDLRAVQELLGHAS 267

                        170
                 ....*....|....*....
gi 763150918 164 IQNTVIYTASNAQRFKEIW 182
Cdd:COG4973  268 ISTTQIYTHLDFQHLAEVY 286
recomb_XerD TIGR02225
tyrosine recombinase XerD; The phage integrase family describes a number of recombinases with ...
 5-182 1.40e-30

tyrosine recombinase XerD; The phage integrase family describes a number of recombinases with tyrosine active sites that transiently bind covalently to DNA. Many are associated with mobile DNA elements, including phage, transposons, and phase variation loci. This model represents XerD, one of two closely related chromosomal proteins along with XerC (TIGR02224). XerC and XerD are site-specific recombinases which help resolve chromosome dimers to monomers for cell division after DNA replication. In species with a large chromosome and with homologs of XerD on other replicons, the chomosomal copy was preferred for building this model. This model does not detect all XerD, as some apparent XerD examples score below the trusted and noise cutoff scores. XerC and XerD interact with cell division protein FtsK. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 274043 [Multi-domain]  Cd Length: 291  Bit Score: 112.68  E-value: 1.40e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918    5 KHLTPSEVERLLEVTlQGKNPE--RDYCLIYMCFIHGCRASEIGGWRLSDIDLEGGNIYVhRLKNGFSTVHPLYLRERQC 82
Cdd:TIGR02225 103 KVLTVEEVEALLAAP-DVDTPLglRDRAMLELLYATGLRVSELVGLRLEDVNLDEGFVRV-RGKGNKERLVPLGEEAIEA 180

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918   83 LRRWLDKRqRHRWADQ-----EWLFLSNRGGRLSRQRIYGLIRHYSKVAKLEVNAHPHMLRHGCGFALADRGIDTRLIQD 157
Cdd:TIGR02225 181 LERYLKEA-RPLLLKKkvkesDALFLNRRGGPLSRQGVWKILKEYAKRAGIEKPISPHTLRHSFATHLLENGADLRVVQE 259

                         170       180
                  ....*....|....*....|....*
gi 763150918  158 YLGHRNIQNTVIYTASNAQRFKEIW 182
Cdd:TIGR02225 260 LLGHADISTTQIYTHVARERLKEVH 284
DNA_BRE_C cd00397
DNA breaking-rejoining enzymes, C-terminal catalytic domain; The DNA breaking-rejoining enzyme ...
 11-171 4.26e-27

DNA breaking-rejoining enzymes, C-terminal catalytic domain; The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine based site-specific recombinases (integrases) that share the same fold in their catalytic domain containing conserved active site residues. The best-studied members of this diverse superfamily include Human topoisomerase I, the bacteriophage lambda integrase, the bacteriophage P1 Cre recombinase, the yeast Flp recombinase, and the bacterial XerD/C recombinases. Their overall reaction mechanism is essentially identical and involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. The enzymes differ in that topoisomerases cleave and then rejoin the same 5' and 3' termini, whereas a site-specific recombinase transfers a 5' hydroxyl generated by recombinase cleavage to a new 3' phosphate partner located in a different duplex region. Many DNA breaking-rejoining enzymes also have N-terminal domains, which show little sequence or structure similarity.


Pssm-ID: 271175 [Multi-domain]  Cd Length: 167  Bit Score: 100.25  E-value: 4.26e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918  11 EVERLLEVTLQGK-NPERDYCLIYMCFIHGCRASEIGGWRLSDIDLEGGNIYVHRLKNGFSTVHPLYLRERQC--LRRWL 87
Cdd:cd00397    1 ELEKLLDAIDEDKkIDLRDRAILLLLLETGLRISELLALKVKDIDLDNGTIRVRGKKTKGGKERTVPLPKELAeeLKEYL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918  88 DKRQRHRWADQEW-----LFLSNRGGRLSRQRIYGLIRHYSKVAKLEVnaHPHMLRHGCGFALADRGIDTRLIQDYLGHR 162
Cdd:cd00397   81 KERRDKRGPLLKSlylnkLFGTKLGERLSRRTLRRIFKKAGIEAGRKI--TPHSLRHTFATNLLENGVDIKVVQKLLGHS 158


                 ....*....
gi 763150918 163 NIQNTVIYT 171
Cdd:cd00397  159 SISTTQRYL 167
INT_XerDC_C cd00798
XerD and XerC integrases, C-terminal catalytic domains; XerDC-like integrases are involved in ...
 11-177 1.46e-26

XerD and XerC integrases, C-terminal catalytic domains; XerDC-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination of chromosomal replication, and stable plasmid inheritance. They share the same fold in their catalytic domain containing six conserved active site residues and the overall reaction mechanism with the DNA breaking-rejoining enzyme superfamily. In Escherichia coli, the Xer site-specific recombination system acts to convert dimeric chromosomes, which are formed by homologous recombination to monomers. Two related recombinases, XerC and XerD, bind cooperatively to a recombination site present in the E. coli chromosome. Each recombinase catalyzes the exchange of one pair of DNA strand in a reaction that proceeds through a Holliday junction intermediate. These enzymes can bridge two different and well-separated DNA sequences called arm- and core-sites. The C-terminal domain binds, cleaves, and re-ligates DNA strands at the core-sites, while the N-terminal domain is largely responsible for high-affinity binding to the arm-type sites.


Pssm-ID: 271179 [Multi-domain]  Cd Length: 172  Bit Score: 99.12  E-value: 1.46e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918  11 EVERLLEVTLQGK-NPERDYC---LIYMCfihGCRASEIGGWRLSDIDLEGGNIYVH------RLkngfstVhPLYLRER 80
Cdd:cd00798    3 EVERLLDAPDTDTpLGLRDRAileLLYAS---GLRVSELVGLDLSDVDLDEGLVRVTgkgnkeRL------V-PFGSYAV 72

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918  81 QCLRRWLDKRQRHRWADQEW--LFLSNRGGRLSRQRIYGLIRHYSKVAKLEVNAHPHMLRHgcGFA--LADRGIDTRLIQ 156
Cdd:cd00798   73 EALEEYLEERRPLLLKKKPPdaLFLNKRGKRLSRRGVWRILKKYAERAGLPKHVSPHTLRH--SFAthLLEGGADLRVVQ 150

                        170       180
                 ....*....|....*....|.
gi 763150918 157 DYLGHRNIQNTVIYTASNAQR 177
Cdd:cd00798  151 ELLGHASLSTTQIYTHVSFER 171
recomb_XerC TIGR02224
tyrosine recombinase XerC; The phage integrase family describes a number of recombinases with ...
 5-181 1.92e-24

tyrosine recombinase XerC; The phage integrase family describes a number of recombinases with tyrosine active sites that transiently bind covalently to DNA. Many are associated with mobile DNA elements, including phage, transposons, and phase variation loci. This model represents XerC, one of two closely related chromosomal proteins along with XerD (TIGR02225). XerC and XerD are site-specific recombinases which help resolve chromosome dimers to monomers for cell division after DNA replication. In species with a large chromosome and homologs of XerC on other replicons, the chomosomal copy was preferred for building this model. This model does not detect all XerC, as some apparent XerC examples score in the gray zone between trusted (450) and noise (410) cutoffs, along with some XerD examples. XerC and XerD interact with cell division protein FtsK. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 274042 [Multi-domain]  Cd Length: 295  Bit Score: 96.52  E-value: 1.92e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918    5 KHLTPSEVERLLEVTLQGKNP---ERDYCLIYMCFIHGCRASEIGGWRLSDIDLEGGNIYVHRlKNGFSTVHPLYLRERQ 81
Cdd:TIGR02224 105 KFLSEDEMEALLDAPEEDDEDwlaLRDRAILELLYSSGLRVSELVGLDLSDLDLDFGEVRVRG-KGNKERIVPFGPYARD 183

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918   82 CLRRWLDKRqRHRWA---DQEWLFLSNRGGRLSRQRIYGLIRHYSKVAKLEVNAHPHMLRHgcGFA--LADRGIDTRLIQ 156
Cdd:TIGR02224 184 ALQAYLEAR-RSPLLaseGQDALFLNRRGGRLTPRGVQYRLQQLRAKAGLPKHVHPHALRH--SFAthLLNNGADLRAVQ 260

                         170       180
                  ....*....|....*....|....*
gi 763150918  157 DYLGHRNIQNTVIYTASNAQRFKEI 181
Cdd:TIGR02224 261 ELLGHASLSTTQIYTHVDFQHLAKV 285
INT_RitC_C_like cd01182
C-terminal catalytic domain of recombinase RitC, a component of the recombinase trio; ...
 7-177 1.97e-24

C-terminal catalytic domain of recombinase RitC, a component of the recombinase trio; Recombinases belonging to the RitA (also known as pAE1 due to its presence in the deletion prone region of plasmid pAE1 of Alcaligenes eutrophus H1), RitB, and RitC families are associated in a complex referred to as a Recombinase in Trio (RIT) element. These RIT elements consist of three adjacent and unidirectional overlapping genes, one from each family (ritABC in order of transcription). All three integrases contain a catalytic motif, suggesting that they are all active enzymes. However, their specific roles are not yet fully understood. All three families belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism.


Pssm-ID: 271183 [Multi-domain]  Cd Length: 186  Bit Score: 93.88  E-value: 1.97e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918   7 LTPSEVERLLEV----TLQGKnpeRDYCLIYMCFIHGCRASEIGGWRLSDIDLEGG-NIYVHRLKNGFSTVhPLYLRERQ 81
Cdd:cd01182    1 LTREEMKALLAApdrnTSLGR---RDHALLLLLYDTGARVQELADLTIRDLRLDDPaTVRLHGKGRKERTV-PLWKETVA 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918  82 CLRRWLDKRQRHR-WADQEWLFLSNRGGRLSRQRIYGLIRHYSKVAK-----LEVNAHPHMLRHGCGFALADRGIDTRLI 155
Cdd:cd01182   77 ALKAYLQEFHLTPdPKQLFPLFPNRRGQPLTRDGVAYILNKYVALASnrcpsLPKRITPHTLRHTKAMHLLQAGVDLTVI 156

                        170       180
                 ....*....|....*....|..
gi 763150918 156 QDYLGHRNIQNTVIYTASNAQR 177
Cdd:cd01182  157 RDWLGHESVETTQIYAEADLEM 178
xerC PRK00236
site-specific tyrosine recombinase XerC; Reviewed
 5-182 8.82e-23

site-specific tyrosine recombinase XerC; Reviewed


Pssm-ID: 234698 [Multi-domain]  Cd Length: 297  Bit Score: 92.14  E-value: 8.82e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918   5 KHLTPSEVERLLEVTLQ-GKNPERDYC---LIYMCfihGCRASEIGGWRLSDIDLEGGNIYVH------RlkngfsTVhP 74
Cdd:PRK00236 114 KPLDVDQAKRLLDAIDEdDPLALRDRAileLLYGS---GLRLSELVGLDIDDLDLASGTLRVLgkgnkeR------TV-P 183

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918  75 LYLRERQCLRRWLDKRqRHRWADQEWLFLSNRGGRLSRQRIYGLIRHYSKVAKLEVNAHPHMLRHgcGFA--LADRGIDT 152
Cdd:PRK00236 184 LGRAAREALEAYLALR-PLFLPDDDALFLGARGGRLSPRVVQRRVKKLGKKAGLPSHITPHKLRH--SFAthLLESGGDL 260

                        170       180       190
                 ....*....|....*....|....*....|
gi 763150918 153 RLIQDYLGHRNIQNTVIYTASNAQRFKEIW 182
Cdd:PRK00236 261 RAVQELLGHASLSTTQIYTHVDFQHLAEVY 290
xerD PRK00283
tyrosine recombinase;
5-182 1.95e-22

tyrosine recombinase;


Pssm-ID: 234713 [Multi-domain]  Cd Length: 299  Bit Score: 91.02  E-value: 1.95e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918   5 KHLTPSEVERLLEVTLQGkNPE--RDYCLIYMCFIHGCRASEIGGWRLSDIDLEGGNIYVhRLKNGFSTVHPLYLRERQC 82
Cdd:PRK00283 112 KTLSEAQVEALLDAPDID-TPLglRDRAMLELLYATGLRVSELVGLTLDDVSLRQGVVRV-TGKGNKERLVPLGEEAVYA 189

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918  83 LRRWLdKRQRHRWADQ---EWLFLSNRGGRLSRQRIYGLIRHYSKVAKLEVNA-HPHMLRHgcGFA--LADRGIDTRLIQ 156
Cdd:PRK00283 190 IERYL-ERGRPALLNGrssDALFPSARGGQLTRQTFWHRIKHYAKRAGIDPKKlSPHVLRH--AFAthLLNHGADLRVVQ 266

                        170       180
                 ....*....|....*....|....*.
gi 763150918 157 DYLGHRNIQNTVIYTASNAQRFKEIW 182
Cdd:PRK00283 267 ELLGHSDISTTQIYTHVATERLKELH 292
INT_Rci_Hp1_C cd00796
Shufflon-specific DNA recombinase Rci and Bacteriophage Hp1_like integrase, C-terminal ...
 7-171 8.89e-21

Shufflon-specific DNA recombinase Rci and Bacteriophage Hp1_like integrase, C-terminal catalytic domain; Rci protein is a tyrosine recombinase specifically involved in Shufflon type of DNA rearrangement in bacteria. The shufflon of plasmid R64 consists of four invertible DNA segments which are separated and flanked by seven 19-bp repeat sequences. RCI recombinase facilitates the site-specific recombination between any inverted repeats results in an inversion of the DNA segment(s) either independently or in groups. HP1 integrase promotes site-specific recombination of the HP1 genome into that of Haemophilus influenza. Bacteriophage Hp1_like integrases are tyrosine based site specific recombinases. They belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The catalytic domain contains six conserved active site residues. Their overall reaction mechanism is essentially identical and involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA.


Pssm-ID: 271177 [Multi-domain]  Cd Length: 162  Bit Score: 83.92  E-value: 8.89e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918   7 LTPSEVERLLEVTLQGKNPERdYCLIYMCFIHGCRASEIGGWRLSDIDLEGGNIYVHRLKNGFSTVHPlyLRERqcLRRW 86
Cdd:cd00796    5 LTEDEEARLLAALEESTNPHL-RLIVLLALYTGARRGEILSLRWDDIDLEVGLIVLPETKNGKPRTVP--LSDE--AIAI 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918  87 LDKRQRHRWADQEWLFlsnrgGRLSRQRIYGLIRHYSKV---AKLEvNAHPHMLRHGCGFALADRGIDTRLIQDYLGHRN 163
Cdd:cd00796   80 LKELKRKRGKDGFFVD-----GRFFGIPIASLRRAFKKArkrAGLE-DLRFHDLRHTFASRLVQAGVPIKTVAKILGHSS 153


                 ....*...
gi 763150918 164 IQNTVIYT 171
Cdd:cd00796  154 IKMTMRYA 161
INT_RitA_C_like cd01188
C-terminal catalytic domain of recombinase RitA, a component of the recombinase trio; ...
 8-170 2.05e-20

C-terminal catalytic domain of recombinase RitA, a component of the recombinase trio; Recombinases RitA (also known as pAE1), RitB, and RitC are encoded by three adjacent and overlapping genes. Collectively they are known as the Recombinase in Trio (RIT). This RitA family includes various bacterial integrases and integrases from the deletion-prone region of plasmid pAE1 of Alcaligenes eutrophus H1. All three integrases contain a catalytic motif, suggesting that they are all active enzymes. However, their specific roles are not fully understood. All three families belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The catalytic domain contains six conserved active site residues. Their overall reaction mechanism is essentially identical and involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA.


Pssm-ID: 271188 [Multi-domain]  Cd Length: 179  Bit Score: 83.45  E-value: 2.05e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918   8 TPSEVERLLEVTLQGKN-PERDYCLIYMCFIHGCRASEIGGWRLSDIDLEGGNIYVHRLKNGFSTVHPLYLRERQCLRRW 86
Cdd:cd01188    1 SPDEVRRLLAAIDRLTPvGLRDYAILLLLARLGLRAGDVAGLRLDDIDWRSGTITVRQKKTGRPVELPLTEPVGEALADY 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918  87 LdkRQRHRWADQEWLFLSNR--GGRLSRQR-IYGLIRHYSKVAKLEVNAH-PHMLRHGCGFALADRGIDTRLIQDYLGHR 162
Cdd:cd01188   81 L--RDGRPRTDSREVFLRARapYRPLSSTSqISSIVRRYLRKAGIEPSHRgTHSLRHSLATRMLRAGTSLKVIADLLGHR 158


                 ....*...
gi 763150918 163 NIQNTVIY 170
Cdd:cd01188  159 SIETTAIY 166
INT_IntI_C cd01193
Integron integrase and similar protiens, C-terminal catalytic domain; Integron integrases ...
 7-171 1.65e-19

Integron integrase and similar protiens, C-terminal catalytic domain; Integron integrases mediate site-specific DNA recombination between a proximal primary site (attI) and a secondary target site (attC) found within mobile gene cassettes encoding resistance or virulence factors. Unlike other site specific recombinases, the attC sites lack sequence conservation. Integron integrase exhibits broader DNA specificity by recognizing the non-conserved attC sites. The structure shows that DNA target site recognition are not dependent on canonical DNA but on the position of two flipped-out bases that interact in cis and in trans with the integrase. Integron-integrases are present in many natural occurring mobile elements, including transposons and conjugative plasmids. Vibrio, Shewanella, Xanthomonas, and Pseudomonas species harbor chromosomal super-integrons. All integron-integrases carry large inserts unlike the TnpF ermF-like proteins also seen in this group.


Pssm-ID: 271193 [Multi-domain]  Cd Length: 176  Bit Score: 80.78  E-value: 1.65e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918   7 LTPSEVERLLEVTLQGknpeRDYCLIYMCFIHGCRASEIGGWRLSDIDLEGGNIYVHRLKNGFSTVHPLYLRERQCLRRW 86
Cdd:cd01193    6 LSPDEVRRILGALTEL----RHRLILSLLYGAGLRISELLRLRVKDIDFERGVIRVRQGKGGKDRVVPLPEKLLEPLRRY 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918  87 LDKRQRhrwadQEWLFLSN-------------RGGRLSRQRIYGLIRHYSKVAKLEVNAHPHMLRHGCGFALADRGIDTR 153
Cdd:cd01193   82 LKSARP-----KEELDPAEgragvldprtgveRRHHISETTVQRALKKAVEQAGITKRVTPHTLRHSFATHLLEAGTDIR 156

                        170
                 ....*....|....*...
gi 763150918 154 LIQDYLGHRNIQNTVIYT 171
Cdd:cd01193  157 TIQELLGHSDLSTTMIYT 174
xerC PRK01287
site-specific tyrosine recombinase XerC; Reviewed
 7-171 2.28e-17

site-specific tyrosine recombinase XerC; Reviewed


Pssm-ID: 234935 [Multi-domain]  Cd Length: 358  Bit Score: 78.25  E-value: 2.28e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918   7 LTPSEVERLLEV----TLQGKnpeRDYCLIYMCFIHGCRASEIGGWRLSDIDLEGGNIYVHRLKNGFSTVHPLYLRERQC 82
Cdd:PRK01287 137 LSEAETEQVLASpdltTLQGL---RDRALLELLWSTGIRRGELARLDLYDVDASRGVVTVRQGKGNKDRVVPVGERALAW 213

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918  83 LRRWLDK-RQRHRWA-DQEWLFLSNRGGRLSRQRIYGLIRHYSKVAKLEVNAHPHMLRHGCGFALADRGIDTRLIQDYLG 160
Cdd:PRK01287 214 LQRYLQDvRPQLAVRpDSGALFVAMDGDGLARNTLTNMVGRYIRAAGIEKAGACHLFRHAMATQMLENGADTRHIQAILG 293

                        170
                 ....*....|.
gi 763150918 161 HRNIQNTVIYT 171
Cdd:PRK01287 294 HAKLETTQIYT 304
INT_C_like_4 cd01194
Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine ...
 7-170 4.99e-15

Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine recombinase (integrase) belongs to a DNA breaking-rejoining enzyme superfamily. The catalytic domain contains six conserved active site residues. The recombination reaction involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. Many DNA breaking-rejoining enzymes also have N-terminal domains, which show little sequence or structure similarity.


Pssm-ID: 271194 [Multi-domain]  Cd Length: 174  Bit Score: 68.94  E-value: 4.99e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918   7 LTPSEVERLLEVTLQGKNPE--RDYCLIYMCFIHGCRASEIGGWRLSDIDLEGGN--IYVH----RLKNGFSTVHPLYLr 78
Cdd:cd01194    1 LTLEQARQLLASLPIDDSIIglRDRAIISLMVTEGLRTVEIVRADVGDLRQEGEGtiLYVQgkgkTSKDDFVYLRPDVL- 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918  79 erQCLRRWLDKRQRHRWADQEWLFLSNR--GGRLSRQRIYGLIRHYSKVAKLEVNAH-PHMLRHGCGFALADRGIDTRLI 155
Cdd:cd01194   80 --KALQAYLKARGKLDFEEPLFTSLSNNskGQRLTTRSIRRIIKKYLRKAGLDDDRLtAHSLRHTAGTLALKAGKSLREV 157

                        170
                 ....*....|....*
gi 763150918 156 QDYLGHRNIQNTVIY 170
Cdd:cd01194  158 QQLLRHSDPNTTMIY 172
xerS PRK05084
site-specific tyrosine recombinase XerS; Reviewed
 23-171 9.91e-13

site-specific tyrosine recombinase XerS; Reviewed


Pssm-ID: 235339 [Multi-domain]  Cd Length: 357  Bit Score: 64.94  E-value: 9.91e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918  23 KNPERDYCLIYMCFIHGCRASEIGGWRLSDIDLEGGNIYVHRLKNGFSTV------HPlYLRErqclrrWLDKRQRHRWA 96
Cdd:PRK05084 192 KNKERDLAIIALILGSGLRVSELVNLDLSDLNLKQMTIDVTRKGGKRDSVniapfaLP-YLEE------YLKIRASRYKA 264

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918  97 DQE--WLFLSNRGG---RLSRQRIYGLIRHYSKVAKLEVNahPHMLRHGCGFALADRGIDTRLIQDYLGHRNIQNTVIYT 171
Cdd:PRK05084 265 EKQekALFLTKYRGkpnRISARAIEKMVAKYSEAFGVRLT--PHKLRHTLATRLYDATKDQVLVADQLGHTSTETTDLYT 342
INT_RitB_C_like cd00797
C-terminal catalytic domain of recombinase RitB, a component of the recombinase trio; ...
 7-181 1.48e-12

C-terminal catalytic domain of recombinase RitB, a component of the recombinase trio; Recombinases belonging to the RitA (also known as pAE1 due to its presence in the deletion prone region of plasmid pAE1 of Alcaligenes eutrophus H1), RitB, and RitC families are associated in a complex referred to as a Recombinase in Trio (RIT) element. These RIT elements consist of three adjacent and unidirectional overlapping genes, one from each family (ritABC in order of transcription). All three integrases contain a catalytic motif, suggesting that they are all active enzymes. However, their specific roles are not yet fully understood. All three families belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism.


Pssm-ID: 271178 [Multi-domain]  Cd Length: 198  Bit Score: 63.09  E-value: 1.48e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918   7 LTPSEVERLLEVT--LQGKNPERD---YCLIYMCFIHGCRASEIGGWRLSDIDLEGGNIYVHRLKNGFSTVHPLYLRERQ 81
Cdd:cd00797    1 YTDAEIRRLLAAAdqLPPESPLRPltyATLFGLLYATGLRVGEALRLRLEDVDLDSGILTIRQTKFGKSRLVPLHPSTVG 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918  82 CLRRWLDKRQRHRWADQ-EWLFLSNRGGRLSRQRIYGLIRHYSKVAKLE-----VNAHPHMLRHgcGFALadrgidTRLI 155
Cdd:cd00797   81 ALRDYLARRDRLLPSPSsSYFFVSQQGGRLTGGGVYRVFRRLLRRIGLRgagdgRGPRLHDLRH--TFAV------NRLT 152

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|..
gi 763150918 156 ------QD----------YLGHRNIQNTVIYTASNAQRFKEI 181
Cdd:cd00797  153 rwyregADverklpvlstYLGHVNVTDTYWYLTATPELMELA 194
INT_C_like_5 cd01195
Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine ...
 27-170 3.77e-10

Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine recombinase (integrase) belongs to a DNA breaking-rejoining enzyme superfamily. The catalytic domain contains six conserved active site residues. The recombination reaction involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. Many DNA breaking-rejoining enzymes also have N-terminal domains, which show little sequence or structure similarity.


Pssm-ID: 271195 [Multi-domain]  Cd Length: 170  Bit Score: 55.94  E-value: 3.77e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918  27 RDYCLIYMCFIHGCRASEIGGWRLSDIDLEGGNIYVHRLKNGFSTVHPLYLRERQCLRRWLDKRQRHRwadqEWLFLS-- 104
Cdd:cd01195   21 RDEALVRLLLDNALRRSEAVALDVEDLEKEHRRLRILGKGKKQREVVTLPPTTREALAAWLAARGEAE----GPLFVSld 96

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 763150918 105 --NRGGRLSRQRIYGLIRHYSKVAKLEVNAHPHMLRH-GCGFALADRGIDTRLIQDYLGHRNIQNTVIY 170
Cdd:cd01195   97 raSRGRRLSPQAVYRIVRRLAERIGLGKRLSPHGLRHsAITLALDAGAGLIRKVQDFSRHADLRTLQVY 165
integrase_gron TIGR02249
integron integrase; Members of this family are integrases associated with integrons (and ...
 7-171 2.71e-09

integron integrase; Members of this family are integrases associated with integrons (and super-integrons), which are systems for incorporating and expressing cassettes of laterally transferred DNA. Incorporation occurs at an attI site. A super-integron, as in Vibrio sp., may include over 100 cassettes. This family belongs to the phage integrase family (pfam00589) that also includes recombinases XerC (TIGR02224) and XerD (TIGR02225), which are bacterial housekeeping proteins. Within this family of integron integrases, some are designated by class, e.g. IntI4, a class 4 integron integrase from Vibrio cholerae N16961. [DNA metabolism, DNA replication, recombination, and repair, Mobile and extrachromosomal element functions, Other]


Pssm-ID: 131303 [Multi-domain]  Cd Length: 315  Bit Score: 55.09  E-value: 2.71e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918    7 LTPSEVERLLEVtLQGKNperdYCLIYMCFIHGCRASEIGGWRLSDIDLEGGNIYVHRLKNGFSTVHPL------YLRE- 79
Cdd:TIGR02249 102 LTREEVRRLLEH-LEGKY----RLIAKLLYGSGMRLMECLRLRIQDIDFDYGEIRIRQGKGGKDRTVTLpkelipPLREq 176

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918   80 RQCLRRWLDKRQR--------------------HRWADQeWLFLSN------RGGRLSRQRIYG--LIRHYSKVAK---L 128
Cdd:TIGR02249 177 IELARAYHEADLAegyggvylphalarkypnapKEWGWQ-YLFPSHrlsrdpESGVIRRHHINEttIQRAVRRAVEragI 255

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|...
gi 763150918  129 EVNAHPHMLRHGCGFALADRGIDTRLIQDYLGHRNIQNTVIYT 171
Cdd:TIGR02249 256 EKPVTCHTLRHSFATHLLESGADIRTVQELLGHSDVKTTQIYT 298
INT_ICEBs1_C_like cd01189
C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons; ...
 9-171 3.76e-09

C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons; This family of tyrosine based site-specific integrases is has origins in bacterial phages and conjugate transposons. One member is the integrase from Bacillus subtilis conjugative transposon ICEBs1. ICEBs1 can be excised and transfered to various recipients in response to DNA damage or high concentrations of potential mating partners. The family belongs to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The catalytic domain contains six conserved active site residues. Their overall reaction mechanism involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA.


Pssm-ID: 271189 [Multi-domain]  Cd Length: 147  Bit Score: 52.56  E-value: 3.76e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918   9 PSEVERLLEVTLqgKNPERDYCLIYMCFIHGCRASEIGGWRLSDIDLEGGNIYVHrlkngfstvhplylrerqclrrwld 88
Cdd:cd01189    1 PEELKKLLEALK--KRGDRYYLLFLLALLTGLRRGELLALTWSDIDFENGTIRIN------------------------- 53

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918  89 kRQRHRWADQEWLFLSNRGGRLSR-----QRIYGLIRHYSKVAKLEVNA-----HPHMLRHGCGFALADRGIDTRLIQDY 158
Cdd:cd01189   54 -RTLVRKKKGGYVIKPPKTKSSIRtiplpDELIELLKELKAFKKLLKKAglpriTPHDLRHTFASLLLEAGVPLKVIAER 132

                        170
                 ....*....|....
gi 763150918 159 LGHRNIQNTV-IYT 171
Cdd:cd01189  133 LGHSDISTTLdVYA 146
INT_tnpA_C_Tn554 cd01186
Putative Transposase A from transposon Tn554, C-terminal catalytic domain; This family ...
 7-167 7.74e-08

Putative Transposase A from transposon Tn554, C-terminal catalytic domain; This family includes putative Transposase A from transposon Tn554. It belongs to a DNA breaking-rejoining enzyme superfamily. The catalytic domain contains six conserved active site residues. The recombination reaction involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. Many DNA breaking-rejoining enzymes also have N-terminal domains, which show little sequence or structure similarity.


Pssm-ID: 271186 [Multi-domain]  Cd Length: 184  Bit Score: 49.72  E-value: 7.74e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918   7 LTPSEVERLLEvtlqGKNPERDYCLIYMCFIHGCRASEIGGWRLSDIDLEGGNIYVHRLKNGFSTVHPLYLRERQC---- 82
Cdd:cd01186    2 LTPREVQELIN----ACNNLRDKFLLALLYETGLRIGEALGLRIEDIDMADNQIELVPREDNTNEARAKSMRERRIpvsq 77

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918  83 --LRRWLDK-RQRHRWADQE--WLFLS----NRGGRLSRQRIYGLIRHYSKvaKLEVNAHPHMLRHGCGFALADRGIDTR 153
Cdd:cd01186   78 dlIDLYADYlTYIYCEEAEFsiTVFVNvkggNQGKAMNYSDVYDLVRRLKK--RTGIDFTPHMFRHTHATALIRAGWSIE 155

                        170
                 ....*....|....
gi 763150918 154 LIQDYLGHRNIQNT 167
Cdd:cd01186  156 VVARRLGHAHVQTT 169
INTN1_C_like cd01185
Integrase IntN1 of Bacteroides mobilizable transposon NBU1 and similar proteins, C-terminal ...
 10-171 2.61e-07

Integrase IntN1 of Bacteroides mobilizable transposon NBU1 and similar proteins, C-terminal catalytic domain; IntN1 is a tyrosine recombinase for the integration and excision of Bacteroides mobilizable transposon NBU1 from the host chromosome. IntN1 does not require strict homology between the recombining sites seen with other tyrosine recombinases. This family belongs to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The catalytic domain contains six conserved active site residues. Their overall reaction mechanism involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA.


Pssm-ID: 271185 [Multi-domain]  Cd Length: 161  Bit Score: 48.03  E-value: 2.61e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918  10 SEVERLLEVTLQG--KNPERDYCLIYMCFIhGCRASEIGGWRLSDIDLEGGNIYV--HRLKNGFSTVHPLYLRerqcLRR 85
Cdd:cd01185    1 EELKRLMALELSDtsRLELVRDMFLFSCYT-GLRFSDLKNLTWKNIVEASGRTWIryRRKKTGKPVTVPLLPV----ARE 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918  86 WLDKRQRHRwaDQEWLFLSnrggrLSRQRIYGLIRHYSKVAKLEVNAHPHMLRHGCGFALADRGIDTRLIQDYLGHRNIQ 165
Cdd:cd01185   76 ILEKYKDDR--SEGKLFPV-----LSNQKINRYLKEIAKIAGIDKHLTFHVARHTFATLLLLKGVDIETISKLLGHSSIK 148


                 ....*.
gi 763150918 166 NTVIYT 171
Cdd:cd01185  149 TTQIYA 154
FimB COG0582
Integrase/recombinase, includes phage integrase [Replication, recombination and repair, ...
 2-167 3.16e-06

Integrase/recombinase, includes phage integrase [Replication, recombination and repair, Mobilome: prophages, transposons];


Pssm-ID: 440347 [Multi-domain]  Cd Length: 391  Bit Score: 46.19  E-value: 3.16e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918   2 SNRKHLTPSEVERLLEVTLQGKNPERDYCLIYMCFIHGCRASEIGGWRLSDIDLEGG--NIYVHRLKNGfsTVHPLYLrE 79
Cdd:COG0582  201 KHHPALTPEELPELLRALDAYRGSPVTRLALRLLLLTGVRPGELRGARWSEIDLEAAlwTIPAERMKTR--RPHIVPL-S 277

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918  80 RQCLrRWLDKRQRHRwADQEWLFLSNRGGR--LSRQRIYGLIRHyskvAKLEvNAHPHMLRHGCGFALADRGIDTRLIQD 157
Cdd:COG0582  278 RQAL-EILKELKPLT-GDSEYVFPSRRGPKkpMSENTLNKALRR----MGYG-RFTPHGFRHTASTLLNEAGFPPDVIER 350

                        170
                 ....*....|
gi 763150918 158 YLGHRNIQNT 167
Cdd:COG0582  351 QLAHKDGNKV 360
PRK15417 PRK15417
integron integrase;
7-171 8.07e-06

integron integrase;


Pssm-ID: 185315 [Multi-domain]  Cd Length: 337  Bit Score: 45.04  E-value: 8.07e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918   7 LTPSEVERLLEVtLQGKNperdYCLIYMCFIHGCRASEIGGWRLSDIDLEGGNIYVHRLKNgfSTVHPLYLRE------R 80
Cdd:PRK15417 117 LTPDEVVRILGF-LEGEH----RLFAQLLYGTGMRISEGLQLRVKDLDFDHGTIIVREGKG--SKDRALMLPEslapslR 189

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918  81 QCLRR----WLDK-------------------RQRHRWAdQEWLFLSN------RGGRLSRQRIYG--LIRHYSKV---A 126
Cdd:PRK15417 190 EQLSRarawWLKDqaegrsgvalpdalerkypRAGHSWP-WFWVFAQHthstdpRSGVVRRHHMYDqtFQRAFKRAveqA 268

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*
gi 763150918 127 KLEVNAHPHMLRHGCGFALADRGIDTRLIQDYLGHRNIQNTVIYT 171
Cdd:PRK15417 269 GITKPATPHTLRHSFATALLRSGYDIRTVQDLLGHSDVSTTMIYT 313
INT_P4_C cd00801
Bacteriophage P4 integrase, C-terminal catalytic domain; P4-like integrases are found in ...
 8-161 8.85e-05

Bacteriophage P4 integrase, C-terminal catalytic domain; P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. The P4 integrase mediates integrative and excisive site-specific recombination between two sites, called attachment sites, located on the phage genome and the bacterial chromosome. The phage attachment site is often found adjacent to the integrase gene, while the host attachment sites are typically situated near tRNA genes. This family belongs to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The catalytic domain contains six conserved active site residues. Their overall reaction mechanism involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA.


Pssm-ID: 271182 [Multi-domain]  Cd Length: 180  Bit Score: 41.10  E-value: 8.85e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918   8 TPSEVERLLEVTLQGKNPERDYCLIYMCFIHGCRASEIGGWRLSDIDLEGG--NIYVHRLKNGfsTVHPLYLRERqcLRR 85
Cdd:cd00801    1 SPDELPELWRALDTANLSPPTKLALRLLLLTGQRIGELARARWSEIDLEEKtwTIPAERTKNK--RPHRVPLSDQ--ALE 76

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 763150918  86 WLdKRQRHRWADQEWLF--LSNRGGRLSRQRIYGLIRHYSKVAKLevnAHPHMLRHGCGFALADRGIDTRLIQDYLGH 161
Cdd:cd00801   77 IL-EELKEFTGDSGYLFpsRRKKKKPISENTINKALKRLGYKGKE---FTPHDLRRTFSTLLNELGIDPEVIERLLNH 150
INT_C_like_1 cd01184
Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine ...
 7-162 9.60e-05

Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine recombinase (integrase) belongs to a DNA breaking-rejoining enzyme superfamily. The catalytic domain containing six conserved active site residues. The recombination reaction involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. Many DNA breaking-rejoining enzymes also have N-terminal domains, which show little sequence or structure similarity.


Pssm-ID: 271184 [Multi-domain]  Cd Length: 180  Bit Score: 41.14  E-value: 9.60e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918   7 LTPSEVERLLEVTLQGKNPERDYCLIYMCFI---HGCRASEIGGWRLSDIDLEGGNIYVH--------RLKNGFST---- 71
Cdd:cd01184    1 FTPEELAKIFSSPLYTGCKKKDPALYWLPLIglyTGARLNEICQLRVDDIKEEDGIWCIDinddaegrRLKTKASRrlvp 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918  72 VHPLYLRERqcLRRWLDKRQRHrwaDQEWLFLSNRGGRLSRQRIYG--LIRHYSKVAKLEVNAHP-HMLRHGCGFALADR 148
Cdd:cd01184   81 IHPRLIELG--FLDYVEALRAD---GKLFLFPEKRDKDGKYSKAASkwFNRLLRKLGIKDDERKSfHSFRHTFITALKRA 155

                        170
                 ....*....|....
gi 763150918 149 GIDTRLIQDYLGHR 162
Cdd:cd01184  156 GVPEELIAQIVGHS 169
INT_Cre_C cd00799
C-terminal catalytic domain of Cre recombinase (also called integrase); Cre-like recombinases ...
 12-180 1.47e-04

C-terminal catalytic domain of Cre recombinase (also called integrase); Cre-like recombinases are tyrosine based site specific recombinases. They belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre recombinase maintains the circular phage replicon in a monomeric state by catalyzing a site-specific recombination between two loxP sites. The catalytic core domain of Cre recombinase is linked to a more divergent helical N-terminal domain, which interacts primarily with the DNA major groove proximal to the crossover region.


Pssm-ID: 271180  Cd Length: 188  Bit Score: 40.75  E-value: 1.47e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918  12 VERLLEV----TLQGKnpeRDYCLIYMCFIHGCRASEIGGWRLSDIDLEGGNIYVHRLK----NGFSTVHPLYL--RERQ 81
Cdd:cd00799    1 LKAMLATlddtTLRGL---RDRALLLLGFAGALRRSELVALRVEDLTRFVDGGLLIRLRrsktDQDGEGEIKALpyGPET 77

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918  82 C----LRRWLDKRQRHRWAdqewLFLS-NRGG-----RLSRQRIYGLIRHYSKVAKLEVNAH-PHMLRHgcGFA--LADR 148
Cdd:cd00799   78 CpvraLRAWLEAAGIPSGP----LFRRiRRGGsvgttRLSDRSVARIVKRRAALAGLDPGDFsGHSLRR--GFAteAARA 151

                        170       180       190
                 ....*....|....*....|....*....|..
gi 763150918 149 GIDTRLIQDYLGHRNIQNTVIYTASnAQRFKE 180
Cdd:cd00799  152 GASLPEIMAQGGHKSVATVMRYIRE-ADRFKD 182
INT_tnpB_C_Tn554 cd01187
Putative Transposase B from transposon Tn554, C-terminal catalytic domain; This family ...
 15-170 2.60e-03

Putative Transposase B from transposon Tn554, C-terminal catalytic domain; This family includes putative Transposase B from transposon Tn554. It belongs to a DNA breaking-rejoining enzyme superfamily. The catalytic domain containing six conserved active site residues. The recombination reaction involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. Many DNA breaking-rejoining enzymes also have N-terminal domains, which show little sequence or structure similarity.


Pssm-ID: 271187 [Multi-domain]  Cd Length: 142  Bit Score: 36.64  E-value: 2.60e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918  15 LLEVTLQGKNPERDYCLIY-MCFIHGCRASEIggwrlsdidleggniyvHRLKNGfstvhplylrerqCLRRWLDKRQRH 93
Cdd:cd01187    1 WVAPNLAALDLLPQPIPVVqAAVFTGARASEL-----------------ATLKFG-------------CLHAQTSDDGTF 50

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 763150918  94 rwadQEWLFLSNRGGRLSR--------QRIYGLIRHYSKVAKLEV---------NAHPHMLRHGCGFALADRGIDTRLIQ 156
Cdd:cd01187   51 ----LYWLKWENKGGKQLDipiskkvaELIKTINWTLNELSELKNisddhgerfRFHTHRFRHTVATRLANSGMGILVLQ 126

                        170
                 ....*....|....
gi 763150918 157 DYLGHRNIQNTVIY 170
Cdd:cd01187  127 QLLGHSSPEMTLRY 140
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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